RNR {ccems} | R Documentation |
This is a compilation of ribonucleotide reductase (RNR) literature data into one data frame.
data(RNR)
A data frame with 546 observations on the following 23 variables.
R
r
U
C
G
A
t
tf
g
gf
a
af
X
Mg
v
m
n
fg
year
jrnl
Bioc
is Biochemistry, JBC
is Journal of Biological Chemistry.vol
page
frstAut
IngemarsonR
, KashlanOB
, Rofougaran
, sanath
, and ScottCP
.organism
c("human","mouse","yeast","ecoli")
.
This dataset is predominantly mouse RNR data. All concentrations are in micromolar. To some extent, capital letters are used for ribonucleotides and small letters for deoxyribonucleotides. Free concentrations, where given, were model dependent and were thus converted back to total concentrations, i.e. to make them model independent. Values of zero that lead a sequence of measurements of increasing concentrations were set to 1e-2 (essentially zero) to allow [x]>0 subsetting.
The figure number, year, first author, journal, volume and page number are all included in the dataframe. The main reference is Kashlan OB, Scott CP, Lear JD, Cooperman BS: A comprehensive model for the allosteric regulation of mammalian ribonucleotide reductase. Functional consequences of ATP- and dATP-induced oligomerization of the large subunit. Biochemistry 2002, 41(2):462-474. The first seven rows, by first author Sanath (Sanath Wijerathna of the Dealwis Lab at CWRU), are unpublished.
Radivoyevitch, T. (2008) Equilibrium model selection: dTTP induced R1 dimerization. BMC Systems Biology 2, 15.
library(ccems) RNR[1:40,] d=subset(RNR,(year==2002)&(fg==1)&(X>0),select=c(R,X,m,year)) plot(d$X,d$m,xlab="Total [ATP]", ylab="Weight averaged R1 mass", main="Kashlan et al. Biochemistry, 2002, Fig. 1 (DLS data)")